Schema for knownGene
  Database: hg38    Primary Table: knownGene    Row Count: 412,034   Data last updated: 2024-08-19
Format description: Transcript from default gene set in UCSC browser
On download server: MariaDB table dump directory
fieldexampleSQL type info description
name ENST00000832824.1varchar(255) values Name of gene
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 11120int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 14413int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 11120int(10) unsigned range Coding region start (or end position if for minus strand item)
cdsEnd 11120int(10) unsigned range Coding region end (or start position if for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 11120,12009,12612,13452,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 11211,12227,12721,14413,longblob   Exon end positions (or start positions for minus strand item)
proteinID  varchar(40) values UniProt display ID, UniProt accession, or RefSeq protein ID
alignID uc345qln.1varchar(255) values Unique identifier (GENCODE transcript ID for GENCODE Basic)

Connected Tables and Joining Fields
        hg38.bioCycPathway.kgID (via knownGene.name)
      hg38.ccdsKgMap.geneId (via knownGene.name)
      hg38.ceBlastTab.query (via knownGene.name)
      hg38.dmBlastTab.query (via knownGene.name)
      hg38.drBlastTab.query (via knownGene.name)
      hg38.foldUtr3.name (via knownGene.name)
      hg38.foldUtr5.name (via knownGene.name)
      hg38.gnfAtlas2Distance.query (via knownGene.name)
      hg38.gnfAtlas2Distance.target (via knownGene.name)
      hg38.gnfU95Distance.query (via knownGene.name)
      hg38.gnfU95Distance.target (via knownGene.name)
      hg38.humanHprdP2P.query (via knownGene.name)
      hg38.humanHprdP2P.target (via knownGene.name)
      hg38.humanVidalP2P.query (via knownGene.name)
      hg38.humanVidalP2P.target (via knownGene.name)
      hg38.humanWankerP2P.query (via knownGene.name)
      hg38.humanWankerP2P.target (via knownGene.name)
      hg38.keggPathway.kgID (via knownGene.name)
      hg38.kgAlias.kgID (via knownGene.name)
      hg38.kgColor.kgID (via knownGene.name)
      hg38.kgProtAlias.kgID (via knownGene.name)
      hg38.kgSpAlias.kgID (via knownGene.name)
      hg38.kgTargetAli.qName (via knownGene.name)
      hg38.kgXref.kgID (via knownGene.name)
      hg38.knownAttrs.kgID (via knownGene.name)
      hg38.knownBlastTab.query (via knownGene.name)
      hg38.knownBlastTab.target (via knownGene.name)
      hg38.knownCanonical.transcript (via knownGene.name)
      hg38.knownCds.name (via knownGene.name)
      hg38.knownGeneMrna.name (via knownGene.name)
      hg38.knownGenePep.name (via knownGene.name)
      hg38.knownIsoforms.transcript (via knownGene.name)
      hg38.knownToEnsembl.name (via knownGene.name)
      hg38.knownToGnfAtlas2.name (via knownGene.name)
      hg38.knownToHprd.name (via knownGene.name)
      hg38.knownToKeggEntrez.name (via knownGene.name)
      hg38.knownToLocusLink.name (via knownGene.name)
      hg38.knownToLynx.name (via knownGene.name)
      hg38.knownToMrna.name (via knownGene.name)
      hg38.knownToMrnaSingle.name (via knownGene.name)
      hg38.knownToMupit.name (via knownGene.name)
      hg38.knownToNextProt.name (via knownGene.name)
      hg38.knownToPfam.name (via knownGene.name)
      hg38.knownToRefSeq.name (via knownGene.name)
      hg38.knownToSuper.gene (via knownGene.name)
      hg38.knownToTag.name (via knownGene.name)
      hg38.knownToU133.name (via knownGene.name)
      hg38.knownToU95.name (via knownGene.name)
      hg38.knownToVisiGene.name (via knownGene.name)
      hg38.knownToWikipedia.name (via knownGene.name)
      hg38.mmBlastTab.query (via knownGene.name)
      hg38.rnBlastTab.query (via knownGene.name)
      hg38.scBlastTab.query (via knownGene.name)
      hg38.ucscRetroInfo9.kgName (via knownGene.name)
      hg38.ucscScop.ucscId (via knownGene.name)
      knownGeneV39.bioCycPathway.kgID (via knownGene.name)
      knownGeneV39.ceBlastTab.query (via knownGene.name)
      knownGeneV39.dmBlastTab.query (via knownGene.name)
      knownGeneV39.drBlastTab.query (via knownGene.name)
      knownGeneV39.foldUtr3.name (via knownGene.name)
      knownGeneV39.foldUtr5.name (via knownGene.name)
      knownGeneV39.gnfAtlas2Distance.query (via knownGene.name)
      knownGeneV39.gnfAtlas2Distance.target (via knownGene.name)
      knownGeneV39.kgAlias.kgID (via knownGene.name)
      knownGeneV39.kgColor.kgID (via knownGene.name)
      knownGeneV39.kgProtAlias.kgID (via knownGene.name)
      knownGeneV39.kgSpAlias.kgID (via knownGene.name)
      knownGeneV39.kgTargetAli.qName (via knownGene.name)
      knownGeneV39.kgXref.kgID (via knownGene.name)
      knownGeneV39.knownAttrs.kgID (via knownGene.name)
      knownGeneV39.knownBlastTab.query (via knownGene.name)
      knownGeneV39.knownBlastTab.target (via knownGene.name)
      knownGeneV39.knownCanonical.protein (via knownGene.name)
      knownGeneV39.knownCanonical.transcript (via knownGene.name)
      knownGeneV39.knownCds.name (via knownGene.name)
      knownGeneV39.knownGene.name (via knownGene.name)
      knownGeneV39.knownGeneMrna.name (via knownGene.name)
      knownGeneV39.knownGenePep.name (via knownGene.name)
      knownGeneV39.knownIsoforms.transcript (via knownGene.name)
      knownGeneV39.knownToEnsembl.name (via knownGene.name)
      knownGeneV39.knownToGnfAtlas2.name (via knownGene.name)
      knownGeneV39.knownToHprd.name (via knownGene.name)
      knownGeneV39.knownToLocusLink.name (via knownGene.name)
      knownGeneV39.knownToMrna.name (via knownGene.name)
      knownGeneV39.knownToMrnaSingle.name (via knownGene.name)
      knownGeneV39.knownToMupit.name (via knownGene.name)
      knownGeneV39.knownToPfam.name (via knownGene.name)
      knownGeneV39.knownToRefSeq.name (via knownGene.name)
      knownGeneV39.knownToSuper.gene (via knownGene.name)
      knownGeneV39.knownToTag.name (via knownGene.name)
      knownGeneV39.knownToU133.name (via knownGene.name)
      knownGeneV39.knownToU95.name (via knownGene.name)
      knownGeneV39.knownToVisiGene.name (via knownGene.name)
      knownGeneV39.knownToWikipedia.name (via knownGene.name)
      knownGeneV39.mmBlastTab.query (via knownGene.name)
      knownGeneV39.rnBlastTab.query (via knownGene.name)
      knownGeneV39.scBlastTab.query (via knownGene.name)
      knownGeneV39.ucscScop.ucscId (via knownGene.name)

Sample Rows
 
namechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsproteinIDalignID
ENST00000832824.1chr1+11120144131112011120411120,12009,12612,13452,11211,12227,12721,14413,uc345qln.1
ENST00000832825.1chr1+11124144051112411124411124,12009,12612,13402,11211,12227,12721,14405,uc345qlo.1
ENST00000832826.1chr1+11409144131140911409411409,12009,12594,13482,11671,12227,12721,14413,uc345qlp.1
ENST00000832827.1chr1+11410144131141011410411410,12009,12612,13482,11671,12227,12721,14413,uc345qlq.1
ENST00000832828.1chr1+11425144091142511425411425,12009,12612,13220,11671,12227,12721,14409,uc345qlr.1
ENST00000832829.1chr1+11769144161176911769411769,12009,12612,13482,11844,12227,12721,14416,uc345qls.1
ENST00000832830.1chr1+11818144131181811818411818,12009,12612,13482,11844,12227,12697,14413,uc345qlt.1
ENST00000832837.1chr1+11822144061182211822411822,12009,12594,13220,11844,12227,12721,14406,uc345qma.1
ENST00000832836.1chr1+11823144091182311823311823,12009,13482,11844,12697,14409,uc345qlz.1
ENST00000832832.1chr1+11823144131182311823411823,12009,12612,13486,11844,12227,12721,14413,uc345qlv.1

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.